genome.fa.s5.2.7.7.80.10.50.1000.31.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   

This is table  31  of  85  ( 10117 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10320092--10320119	11	2.5	11	100	0	56	0	0	7	92	0.37
10322110--10322190	37	2.2	36	80	12	94	56	4	3	34	1.38
10323889--10323933	11	3.9	11	77	11	54	35	2	2	60	1.22
10326308--10326359	19	2.7	19	75	0	59	59	3	5	30	1.39
10326841--10327105	92	2.9	89	84	7	354	33	11	18	36	1.87
10327949--10328000	19	2.7	19	75	0	59	59	3	5	30	1.39
10328482--10328723	92	2.7	91	84	6	330	35	11	18	34	1.87
10329364--10329455	4	22.2	4	73	18	57	69	7	22	0	1.13
10329364--10329455	13	7.4	12	70	21	57	69	7	22	0	1.13
10330202--10330339	40	3.5	40	70	10	97	26	18	24	30	1.98
10331824--10331853	13	2.4	12	94	5	51	46	6	0	46	1.29
10331853--10331887	18	1.9	18	94	0	61	60	0	11	28	1.32
10332210--10332249	16	2.6	15	88	7	62	60	0	2	37	1.11
10348207--10348236	16	1.9	16	93	6	53	30	0	20	50	1.49
10348554--10348595	17	2.5	17	100	0	84	40	0	16	42	1.48
10350837--10351140	41	7.4	40	85	3	351	52	7	19	20	1.69
10350837--10351129	82	3.6	82	86	2	403	53	7	18	20	1.68
10350837--10351140	123	2.5	122	86	4	398	52	7	19	20	1.69
10352893--10352932	18	2.2	18	100	0	80	17	7	27	47	1.74
10361727--10361762	18	2.0	18	88	0	54	19	47	13	19	1.83
10361965--10362001	12	3.1	12	96	0	65	40	29	27	2	1.70
10362000--10362039	21	1.9	20	85	10	53	22	52	17	7	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10365727--10365852	60	2.1	60	86	0	180	28	34	25	11	1.90
10367136--10367188	19	2.8	18	88	8	79	69	0	0	30	0.88
10367130--10367215	11	8.2	11	70	20	60	61	0	1	37	1.04
10367209--10367233	7	3.6	7	100	0	50	88	0	0	12	0.53
10367490--10367559	29	2.3	30	87	4	97	35	7	12	44	1.70
10367511--10367570	29	2.1	29	87	0	84	33	5	11	50	1.61
10367675--10367775	29	3.3	29	81	10	89	41	8	9	39	1.70
10371450--10371499	25	2.0	25	84	0	64	16	20	40	24	1.91
10406601--10406644	22	2.0	22	91	4	72	22	4	13	59	1.53
10406603--10406656	22	2.4	23	72	12	58	20	1	12	64	1.36
10409971--10410039	26	2.7	26	82	8	86	36	14	18	30	1.91
10417641--10418127	46	10.7	46	89	3	657	22	21	16	40	1.91
10417641--10418127	137	3.6	137	87	3	653	22	21	16	40	1.91
10417641--10418127	183	2.7	183	87	4	644	22	21	16	40	1.91
10417912--10418031	24	5.2	24	59	15	63	25	21	14	39	1.91
10417867--10418190	45	7.1	45	81	5	165	22	20	16	40	1.91
10424313--10424408	44	2.2	44	90	0	147	33	6	26	34	1.81
10429751--10429794	18	2.4	18	92	0	70	36	6	18	38	1.77
10431288--10431326	15	2.7	15	84	7	55	64	10	2	23	1.37
10441410--10441437	3	9.3	3	100	0	56	67	0	0	32	0.91
10443626--10443665	20	2.0	20	95	0	71	47	5	7	40	1.54
10444120--10444421	107	2.9	104	86	4	421	31	17	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10456051--10456290	40	5.8	41	77	11	265	33	23	20	22	1.97
10456055--10456294	84	2.9	84	90	3	385	34	22	20	22	1.97
10458318--10458618	107	2.8	107	90	1	487	31	18	18	31	1.95
10458948--10459110	81	2.0	81	100	0	326	29	26	8	34	1.86
10465210--10465331	49	2.5	49	82	5	140	32	16	27	22	1.96
10471584--10471663	42	1.9	42	94	0	142	32	30	15	22	1.94
10473215--10473255	21	2.0	21	90	0	64	65	12	12	9	1.46
10482864--10482908	19	2.3	19	82	14	56	6	15	2	75	1.11
10482855--10482908	20	2.7	19	85	8	63	7	16	1	74	1.14
10485595--10485677	41	2.0	42	97	2	159	32	16	21	28	1.96
10488627--10488705	18	4.5	18	70	16	67	60	2	1	35	1.18
10490455--10490585	59	2.2	60	80	8	142	41	16	3	38	1.66
10490615--10490661	19	2.5	19	89	0	67	63	4	2	29	1.25
10496982--10497080	39	2.5	39	90	0	144	27	4	24	44	1.71
10499961--10500089	42	3.1	42	86	6	190	29	31	17	22	1.96
10499960--10500109	43	3.5	44	85	5	191	32	28	17	22	1.96
10500468--10500513	21	2.2	21	84	0	56	4	45	13	36	1.63
10500582--10501496	467	2.0	466	90	1	1456	35	20	12	31	1.89
10509276--10509303	6	4.7	6	100	0	56	85	14	0	0	0.59
10510513--10510679	35	4.8	33	70	11	93	40	41	0	17	1.54
10510513--10510811	7	42.7	7	68	14	82	41	39	1	18	1.59
10510617--10510686	22	3.3	22	80	7	65	41	37	1	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10511273--10511350	41	1.9	41	83	0	102	16	26	15	41	1.88
10511748--10511780	2	16.5	2	100	0	66	48	0	0	51	1.00
10520206--10520332	59	2.2	57	81	4	148	48	6	20	24	1.72
10524360--10524410	20	2.4	21	87	6	68	45	9	11	33	1.74
10524635--10524876	34	7.2	34	92	0	337	21	26	15	36	1.93
10524636--10524876	66	3.6	67	90	1	358	21	26	15	36	1.93
10527732--10527774	21	2.0	23	81	9	54	32	11	11	44	1.77
10535321--10535487	90	1.9	90	88	2	255	31	25	11	31	1.91
10549239--10549324	45	1.9	45	92	0	145	32	24	16	26	1.96
10549388--10549419	12	2.7	12	95	0	55	34	28	12	25	1.92
10549326--10549464	63	2.2	63	92	5	226	30	26	18	23	1.98
10549400--10549576	51	3.5	48	75	9	149	30	26	17	25	1.97
10549392--10549578	101	1.9	101	82	11	224	31	26	17	25	1.97
10566489--10566514	2	13.0	2	100	0	52	0	0	50	50	1.00
10570900--10571052	76	2.0	76	91	2	245	41	20	10	28	1.85
10572754--10572804	23	2.2	24	80	16	63	56	17	0	25	1.41
10573852--10573878	8	3.4	8	100	0	54	88	0	0	11	0.50
10574181--10574250	28	2.5	27	84	6	95	65	0	1	32	1.01
10574692--10574737	22	2.0	23	87	4	67	50	2	2	45	1.26
10574793--10574866	32	2.3	32	83	6	87	40	2	9	47	1.50
10574733--10574965	105	2.2	108	89	3	355	41	7	7	43	1.61
10574963--10574998	6	6.0	6	93	0	63	19	0	47	33	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10574967--10575006	18	2.2	18	86	0	53	20	2	45	32	1.64
10575024--10575101	15	5.2	15	74	22	67	23	0	33	43	1.54
10575046--10575082	12	3.0	12	92	4	56	24	0	40	35	1.55
10575051--10575119	6	11.0	6	73	14	59	20	1	42	36	1.61
10575059--10575131	33	2.3	32	86	9	105	17	1	39	41	1.58
10575036--10575133	45	2.2	45	88	0	142	19	1	37	41	1.58
10575185--10575224	7	5.9	7	83	16	57	52	0	0	47	1.00
10575239--10575320	22	3.8	22	95	1	139	24	1	29	45	1.61
10575223--10575318	43	2.2	44	85	9	126	26	1	27	45	1.60
10575372--10575411	7	5.9	7	83	16	57	52	0	0	47	1.00
10577550--10577649	51	2.0	51	84	4	130	46	3	26	25	1.67
10577611--10577671	22	2.8	22	80	14	65	42	3	29	24	1.70
10577630--10577671	11	3.8	11	81	6	50	45	4	28	21	1.72
10579682--10579708	2	13.5	2	100	0	54	48	0	0	51	1.00
10581337--10581381	19	2.3	19	80	3	54	37	0	0	62	0.96
10582637--10582670	17	2.0	17	88	0	50	50	11	2	35	1.54
10583575--10583747	81	2.1	82	96	1	321	26	17	15	40	1.89
10583733--10583802	8	8.6	8	73	14	63	22	0	4	72	1.01
10583729--10583801	24	3.0	24	91	2	119	23	0	5	71	1.07
10586793--10586845	17	3.1	18	76	15	51	60	20	1	16	1.45
10589920--10589967	24	2.0	25	87	4	71	16	8	6	68	1.35
10590096--10590129	14	2.5	14	90	4	52	50	32	0	17	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10592421--10592488	22	3.1	21	80	19	77	67	8	10	13	1.41
10596446--10596481	18	2.0	18	100	0	72	11	5	44	38	1.63
10597407--10597440	17	2.0	17	88	11	52	64	0	0	35	0.94
10600231--10600421	98	1.9	99	91	1	312	37	23	10	28	1.89
10601337--10601370	15	2.2	16	89	5	52	55	17	0	26	1.42
10603875--10604245	132	2.8	126	75	9	350	27	22	18	31	1.97
10608896--10609457	287	2.0	286	93	0	962	26	22	16	35	1.95
10618988--10619021	17	2.0	17	100	0	68	5	29	0	64	1.17
10636862--10636895	7	4.7	7	85	7	50	70	0	0	29	0.87
10652274--10652306	13	2.4	14	90	5	50	30	15	12	42	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85